Adil Mardinoglu

Forskarassistent at Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Dr. Adil Mardinoglu works in Systems Biology group and his research is focused on the establishment of Human Metabolic Atlas (HMA), an interactive data analysis and model simulation platform. HMA platform employ systems biology approaches to elucidate some of the genes, metabolites and reactions that are underlying several complex diseases such as obesity and its adverse outcomes. Healthcare professionals and pharmaceutical developers may harvest and translate the outcomes of HMA platform into the benefit of patients, find new therapies and eventually determine more effective personalized medicine for variety of diseases.

Source: chalmers.se

Projects

2014–2018

Integrating Modelling of Metabolism and Signalling towards an Application in Liver Cancer (ERASysAPP - IMOMESIC)

Jens B Nielsen Biology and Biological Engineering
Avlant Nilsson Systems and Synthetic Biology
Adil Mardinoglu Systems and Synthetic Biology
Swedish Research Council (VR)

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Publications

2017

New challenges to study heterogeneity in cancer redox metabolism

Adil Mardinoglu, Jens B Nielsen, Rui Benfeitas et al
Journal of Logic and Computation. Vol. 5 (JUL)
Journal article
2017

The effect of the TM6SF2 E167K variant on liver steatosis and fibrosis in patients with chronic hepatitis C: a meta-analysis

S. P. Que, L. Valenti, L. Zhou et al
Scientific Reports. Vol. 7 (1), p. 9273-
Journal article
2017

Personal model-assisted identification of NAD(+) and glutathione metabolism as intervention target in NAFLD

Marcus Ståhlman, Martin Adiels, B. Verges et al
Molecular Systems Biology. Vol. 13 (3)
Journal article
2017

Plasma Mannose Levels Are Associated with Incident Type 2 Diabetes and Cardiovascular Disease

M. Bluher, L. A. Lotta, M. Laakso et al
Cell Metabolism. Vol. 26 (2), p. 281-283
Journal article
2017

Selection of complementary foods based on optimal nutritional values

Adil Mardinoglu, Partho Sen, Jens B Nielsen
Scientific Reports. Vol. 7 (1), p. Article no 5413 -
Journal article
2017

Network analyses identify liver-specific targets for treating liver diseases

M. Klevstig, Joshua K. Park, G. Kunos et al
Molecular Systems Biology. Vol. 13 (8)
Journal article
2017

Mitochondria-related transcriptional signature is downregulated in adipocytes in obesity: a study of young healthy MZ twins

G. Fruhbeck, A. Hakkarainen, N. Lundbom et al
Diabetologia. Vol. 60 (1), p. 169-181
Journal article
2017

A pathology atlas of the human cancer transcriptome

J. M. Schwenk, Z. T. Liu, P. Nilsson et al
Science. Vol. 357 (6352), p. 660-+
Journal article
2017

VIMENTIN DEFICIENCY IN MACROPHAGES INDUCES CD36-MEDIATED INFLAMMATION

Adil Mardinoglu, Malin Levin, Lillemor Mattsson Hultén et al
Atherosclerosis. Vol. 263, p. E87-E88
Conference contribution
2017

AUP1 (Ancient Ubiquitous Protein 1): A Molecular Link Between Hepatic Lipid Mobilization and VLDL Secretion

Adil Mardinoglu, Jan Borén
Arteriosclerosis, Thrombosis, and Vascular Biology. Vol. 37 (4), p. 609-610
Scientific journal article - non peer reviewed
2016

Editorial: The Impact of Systems Medicine on Human Health and Disease

Jens B Nielsen, Adil Mardinoglu
Frontiers in Physiology. Vol. 7 (NOV)
Scientific journal article - non peer reviewed
2016

Confounding effects of metformin on the human gut microbiome in Type 2 diabetes

Jan Borén, Ulf Smith, Adil Mardinoglu
Cell Metabolism. Vol. 23 (1), p. 10-12
Journal article
2016

Transcriptomics resources of human tissues and organs

Adil Mardinoglu, C. Lindskog, M. Uhlen et al
Molecular Systems Biology. Vol. 12 (4)
Journal article
2016

Adaptive Evolution of Phosphorus Metabolism in Prochlorococcus.

Jens B Nielsen, Adil Mardinoglu, John R Casey et al
mSystems. Vol. 1 (6), p. Article no UNSP e00065 -
Journal article
2016

Investigating the Combinatory Effects of Biological Networks on Gene Co-expression

SangWook Lee, C. Zhang, Adil Mardinoglu et al
Frontiers in Physiology. Vol. 7 (MAY)
Journal article
2016

Phenotypic and genetic variance: a systems approach to the liver

Adil Mardinoglu, M. Uhlen
Nature Reviews Gastroenterology and Hepatology. Vol. 13 (8), p. 439-440
Scientific journal article - non peer reviewed
2016

ARAP2 promotes GLUT1-mediated basal glucose uptake through regulation of sphingolipid metabolism

Kim Ekroos, Reza Mobini, Emma Lu et al
Biochimica et Biophysica Acta - Molecular and Cell Biology of Lipids. Vol. 1861 (11), p. 1643-1651
Journal article
2016

Integrated Network Analysis Reveals an Association between Plasma Mannose Levels and Insulin Resistance

Elias Björnson, M. Snyder, SangWook Lee et al
Cell Metabolism. Vol. 24 (1), p. 172-184
Journal article
2016

Personalized Cardiovascular Disease Prediction and Treatment-A Review of Existing Strategies and Novel Systems Medicine Tools

Elias Björnson, Jan Borén, Adil Mardinoglu
Frontiers in Physiology. Vol. 7 (JAN)
Journal article
2016

Systems biology analysis of hepatitis C virus infection reveals the role of copy number increases in regions of chromosome 1q in hepatocellular carcinoma metabolism

Ibrahim El-Semman, Jens B Nielsen, Saeed Shoaie et al
Molecular BioSystems. Vol. 12 (5), p. 1496-1506
Journal article
2016

Integrated Network Modeling for Novel Target Searches and Better Predictive Models

J. Bosley, Adil Mardinoglu
Journal of Pharmacokinetics and Pharmacodynamics. Vol. 43, p. S88-S88
Conference contribution
2016

Dysregulated signaling hubs of liver lipid metabolism reveal hepatocellular carcinoma pathogenesis

D. Lee, C. Zhang, Jens B Nielsen et al
Nucleic Acids Research. Vol. 44 (12), p. 5529-5539
Journal article
2015

Extensive weight loss reveals distinct gene expression changes in human subcutaneous and visceral adipose tissue

Elias Björnson, Jens B Nielsen, K. Krohn et al
Scientific Reports. Vol. 5, p. 14841-
Journal article
2015

Quantifying Diet-Induced Metabolic Changes of the Human Gut Microbiome

Fredrik Bäckhed, K. Clement, J. K. Nicholson et al
Cell Metabolism. Vol. 22 (2), p. 320-331
Journal article
2015

The gut microbiota modulates host amino acid and glutathione metabolism in mice

C. Zhang, Fredrik Bäckhed, Adil Mardinoglu et al
Molecular Systems Biology. Vol. 11 (10), p. Article Number: 834-
Journal article
2015

Cancer Metabolism: A Modeling Perspective

Jens B Nielsen, Adil Mardinoglu, Pouyan Ghaffari Nouran
Frontiers in Physiology. Vol. 6 (DEC)
Journal article
2015

Logical transformation of genome-scale metabolic models for gene level applications and analysis

Adil Mardinoglu, C. Zhang, Q. Hua et al
Bioinformatics. Vol. 31 (14), p. 2324-2331
Journal article
2015

Tissue-based map of the human proteome

P. Oksvold, C.A.K. Szigyarto, T. Alm et al
Science. Vol. 347 (6220), p. 394-
Journal article
2015

Stratification of Hepatocellular Carcinoma Patients Based on Acetate Utilization

Jens B Nielsen, A. Asplund, Adil Mardinoglu et al
Cell Reports. Vol. 13 (9), p. 2014-2026
Journal article
2015

The human cardiac and skeletal muscle proteomes defined by transcriptomics and antibody-based profiling

C. Kampf, F. Ponten, M. Uhlen et al
BMC Genomics. Vol. 16 (1)
Journal article
2015

New paradigms for metabolic modeling of human cells

Adil Mardinoglu, Jens B Nielsen
Current Opinion in Biotechnology. Vol. 34, p. 91-97
Journal article
2015

Proteome- and Transcriptome-Driven Reconstruction of the Human Myocyte Metabolic Network and Its Use for Identification of Markers for Diabetes

A. Asplund, C. Scheele, Intawat Nookaew et al
Cell Reports. Vol. 11 (6), p. 921-933
Journal article
2015

Identifying anti-growth factors for human cancer cell lines through genome-scale metabolic modeling

M. Uhlen, C. Kampf, Jens B Nielsen et al
Scientific Reports. Vol. 5, p. Art. no. 8183-
Journal article
2015

Kinetic Studies to Elucidate Impaired Metabolism of Triglyceride-rich Lipoproteins in Humans.

Martin Adiels, Jan Borén, Marja-Riitta Taskinen et al
Frontiers in Physiology. Vol. 6 (NOV), p. 342-
Journal article
2015

Modelling the effect of spion size in a stent assisted magnetic drug targeting system with interparticle interactions

P. J. Cregg, Adil Mardinoglu
The Scientific World Journal. Vol. 2015
Journal article
2015

Identifying anti-growth factors for human cancer cell lines through genome-scale metabolic modeling

A. Asplund, Saeed Shoaie, C. Kampf et al
Scientific Reports. Vol. 5, p. Art. no. 8183-
Journal article
2014

Identification of anticancer drugs for hepatocellular carcinoma through personalized genome-scale metabolic modeling

C. Kampf, A. Asplund, Adil Mardinoglu et al
Molecular Systems Biology. Vol. 10 (3)
Journal article
2014

Defining the Human Adipose Tissue Proteome To Reveal Metabolic Alterations in Obesity

M. Bluher, B. M. Hallstrom, Adil Mardinoglu et al
Journal of Proteome Research. Vol. 13 (11), p. 5106-5119
Journal article
2014

The use of Genome-scale metabolic models for drug target and biomarker identification

Jens B Nielsen, M. Uhlen, Adil Mardinoglu
New Biotechnology. Vol. 31, p. S49-S49
Scientific journal article - non peer reviewed
2014

Toxicogenomics directory of chemically exposed human hepatocytes

Thomas S. Weiss, Agapios Sachinidis, Joerg Rahnenfuehrer et al
Archives of Toxicology. Vol. 88 (12), p. 2261-2287
Journal article
2014

Analysis of the Human Tissue-specific Expression by Genome-wide Integration of Transcriptomics and Antibody-based Proteomics

D. Djureinovic, F. Ponten, A. Sivertsson et al
Molecular and Cellular Proteomics. Vol. 13 (2), p. 397-406
Journal article
2014

Defining the human gallbladder proteome by transcriptomics and affinity proteomics

Jens B Nielsen, Adil Mardinoglu, B. M. Hallstrom et al
Proteomics. Vol. 14 (21-22), p. 2498-2507
Journal article
2014

The human liver-specific proteome defined by transcriptomics and antibody-based profiling

Adil Mardinoglu, C. Kampf, M. Uhlen et al
FASEB Journal. Vol. 28 (7), p. 2901-2914
Journal article
2014

Genome-scale metabolic modelling of hepatocytes reveals serine deficiency in patients with non-alcoholic fatty liver disease

Adil Mardinoglu, C. Kampf, M. Uhlen et al
Nature Communications. Vol. 5, p. 11-
Journal article
2013

Integration of clinical data with a genome-scale metabolic model of the human adipocyte

Jens B Nielsen, Rasmus Ågren, C. Kampf et al
Molecular Systems Biology. Vol. 9 (1), p. 649-
Journal article
2013

Integration of clinical data with a genome-scale metabolic model of the human adipocyte

P. Froguel, A. J. Walley, Rasmus Ågren et al
Molecular Systems Biology. Vol. 9 (1), p. 649-
Journal article
2013

Genome-scale modeling of human metabolism - a systems biology approach.

Jens B Nielsen, Francesco Gatto, Adil Mardinoglu
Biotechnology journal. Vol. 8
Journal article
2013

Understanding the interactions between bacteria in the human gut through metabolic modeling

Fredrik Karlsson, Intawat Nookaew, Adil Mardinoglu et al
Scientific Reports. Vol. 3
Journal article
2012

Reconstruction of Genome-Scale Active Metabolic Networks for 69 Human Cell Types and 16 Cancer Types Using INIT

Jens B Nielsen, Intawat Nookaew, Rasmus Ågren et al
PLoS Computational Biology (5)
Journal article
2012

Inclusion of interactions in mathematical modelling of implant assisted magnetic drug targeting

P. J. Cregg, K. Murphy, Adil Mardinoglu
Applied Mathematical Modelling. Vol. 36 (1), p. 1-34
Journal article
2012

Systems medicine and metabolic modelling

Adil Mardinoglu, Jens B Nielsen
Journal of Internal Medicine. Vol. 271 (2), p. 142-154
Journal article
2011

Development of artificial neuronal networks for molecular communication

Adil Mardinoglu
Nano Communication Networks. Vol. 2 (2-3), p. 150-160
Journal article
2011

Artificial backbone neuronal network for nano scale sensors

D. Botvich, A. Prina-Mello, F. Walsh et al
2011 IEEE Conference on Computer Communications Workshops, INFOCOM WKSHPS 2011. Shanghai, 10-15 April 2011, p. 449-454
Paper in proceedings
2011

Theoretical modelling of physiologically stretched vessel in magnetisable stent assisted magnetic drug targetingapplication

Adil Mardinoglu
Journal of Magnetism and Magnetic Materials. Vol. 323 (3-4), p. 324-329
Journal article
2010

Many particle magnetic dipole–dipole and hydrodynamic interactions in magnetizable stent assisted magnetic drug targeting

Adil Mardinoglu
Journal of Magnetism and Magnetic Materials. Vol. 322 (15), p. 2087-2094
Journal article
2009

Inclusion of magnetic dipole–dipole and hydrodynamic interactions in implant-assisted magnetic drug targeting

Adil Mardinoglu
Journal of Magnetism and Magnetic Materials. Vol. 321 (23), p. 3893-3898
Journal article
2008

Calculation of nanoparticle capture efficiency in magnetic drug targeting

Adil Mardinoglu
Journal of Magnetism and Magnetic Materials. Vol. 320 (23), p. 3272-3275
Journal article